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FlyAtlas: the Drosophila gene expression atlas

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Biotechnology & Biological Sciences Research Council
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Latest news: FlyAtlas2 : A Database web-app for fruitfly expression with added RNA & miRNA goodness ! Click here to visit the application. Read all about it here.


This dataset was generated by Venkat Chintapalli, Jing Wang & Julian Dow at the University of Glasgow with funding from the UK's BBSRC.
It gives you a quick answer to the question: where is my gene of interest expressed/enriched in the adult fly?
For each gene & tissue, you're given the mRNA SIGNAL (how abundant the mRNA is), the mRNA ENRICHMENT (compared to whole flies), and the Affymetrix PRESENT CALL (out of 4 arrays, how many times it was detectably expressed).

String to look for? (e.g. vha, cell adhesion, receptor, aquaporin, adenylate, CG1147, pnt)


Searching for FBGN0029906 through 18771 annotations produced 2 hits



Ataxin-1 /// (Atx-1 /// CG4542):

Annotation Number : CG4547
FlyAtlas2 : Click Here for expression data based on RNA-Seq and or miRNA-Seq analyses
Flybase ID : FBgn0029906 /// FBgn0029907
Gbrowse : chrX:6717287-6718090 (+) // 100.0 //
Probeset : 1632190_at
Accessions : protein= NP_001138170; /// NP_572355; /// NP_572356;, nucleotide= NM_001144698; /// NM_132127; /// NM_132128;
Pathway : 0005783 // endoplasmic reticulum // inferred from electronic annotation /// 0005789 // endoplasmic reticulum membrane //
Interpro : "0005488 // binding // inferred from electronic annotation /// 0016740 // transferase activity // inferred from electron
FlyMine data for FBgn0029906 /// FBgn0029907.
Homophila reports that CG4547 is a close match (2e-23) to human gene ATXN1;ATX1;SCA1 (NP_000323), a gene associated with Spinocerebellar ataxia-1, 164400 (3).


TissuemRNA SignalPresent CallEnrichmentAffy Call
Brain2 10 of 4 0.60None
Head1 00 of 4 0.50None
Eye2 10 of 4 0.68None
Thoracicoabdominal ganglion1 00 of 4 0.30None
Salivary gland6 20 of 4 1.59None
Crop2 00 of 4 0.50None
Midgut7 20 of 4 1.90None
Tubule1 00 of 4 0.30Down
Hindgut1 00 of 4 0.30None
Heart0 00 of 4 0.21None
Fat body1 00 of 4 0.44None
Ovary1 00 of 4 0.40None
Testis9 10 of 4 2.60Up
Male accessory glands3 10 of 4 0.90None
Virgin spermatheca0 00 of 4 0.22None
Mated spermatheca1 00 of 4 0.26None
Adult carcass2 00 of 4 0.50None
Larval CNS1 20 of 4 0.48None
Larval Salivary gland2 00 of 4 0.52None
Larval midgut3 10 of 4 0.98None
Larval tubule2 00 of 4 0.60None
Larval hindgut0 00 of 4 0.22None
Larval fat body3 00 of 4 0.80None
Larval trachea0 00 of 4 0.21None
Larval carcass1 00 of 4 0.32None
S2 cells (growing)4 10 of 4 1.07None
Whole fly3 10 of 4



chrX:6715059-6716876 (+) // 100.0 // (Ataxin-1 /// ):

Annotation Number : CG4542
FlyAtlas2 : Click Here for expression data based on RNA-Seq and or miRNA-Seq analyses
Flybase ID : full length
Gbrowse : March 2006 (FlyBase/BDGP 5.3)
Probeset : 1632521_at
Accessions : protein= , nucleotide= NP_001138170; /// NP_572355; /// NP_572356;
Pathway : 0006487 // protein N-linked glycosylation // inferred from sequence or structural similarity /// 0006490 // oligosacchar
Interpro : 0005783 // endoplasmic reticulum // inferred from electronic annotation /// 0005789 // endoplasmic reticulum membrane //
FlyMine data for full length.
Homophila reports that CG4542 is a close match (5e-25) to human gene ALG6 (NP_037471), a gene associated with Congenital disorder of glycosylation, type Ic, 603147 (3).


TissuemRNA SignalPresent CallEnrichmentAffy Call
Brain91 34 of 4 1.70Up
Head72 14 of 4 1.40Up
Eye55 14 of 4 1.03None
Thoracicoabdominal ganglion93 34 of 4 1.80Up
Salivary gland102 104 of 4 1.91Up
Crop42 44 of 4 0.80None
Midgut94 54 of 4 1.80Up
Tubule69 54 of 4 1.30Up
Hindgut65 14 of 4 1.20Up
Heart69 14 of 4 1.29Up
Fat body93 154 of 4 1.74Up
Ovary69 24 of 4 1.30Up
Testis20 14 of 4 0.40Down
Male accessory glands147 94 of 4 2.70Up
Virgin spermatheca93 64 of 4 1.75Up
Mated spermatheca99 64 of 4 1.87Up
Adult carcass77 34 of 4 1.40Up
Larval CNS84 44 of 4 1.58Up
Larval Salivary gland187 94 of 4 3.50Up
Larval midgut87 44 of 4 1.63Up
Larval tubule71 14 of 4 1.30Up
Larval hindgut76 64 of 4 1.42Up
Larval fat body144 164 of 4 2.70Up
Larval trachea57 74 of 4 1.08None
Larval carcass52 04 of 4 0.99None
S2 cells (growing)201 34 of 4 3.76Up
Whole fly53 24 of 4

Looking for FBgn0029906. 2 entries matched from 18771, in 1 s.


Chintapalli, V. R., Wang, J. and Dow, J. A. T. (2007). Using FlyAtlas to identify better Drosophila models of human disease. Nature Genetics 39: 715-720

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